Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgagtggaaggataaagaaagtgactctcacgtaggggcataactttttggctgaaacgatcatctgtcacatctggtctaaatttcttcttgttacagTTTCTGTCCAAGAATGGAATTTATGAGTTCTGGAACTGGTTTGATGATAGGACATG

Basic information

species Zea mays
transcript GRMZM2G060611_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060611_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g44360.1 (Oryza sativa), 3'ss of exon 2
atgagtggaaggataaagaaagtgactctcacgtaggggcataactttttggctgaaacgatcatctgtcacatctggtctaaattt------cttcttgttacagTTTCTGTCCAAGAATGGAATTTATGAGTTCTGGAACTGGTTTGATGATAGGACATG
     |||| |  ||  | ||||      ||   ||  |  ||  |  |||   ||| |  |  |   | ||||| | |||||| ||       | | | ||||||||| |||| |||||||| || || ||||||||||||||||||||||| ||||||||
-----tggatgattagtggaagtatggagca-acagatggttacatgcttgctggaatcagttgtggattacatcagatctaaaatttccatcttacctattacagTTTTTGTCGAAGAATGGGATCTACGAGTTCTGGAACTGGTTTGATGACAGGACATG

upper sequence: GRMZM2G060611_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------atgagtggaaggataaagaaagtgactctcacgtaggggcataactttttggctgaaac--gatcatct----gtcacatctggtc-taaat-------ttcttcttgttacagTTTCTGTCCAAGAATGGAATTTATGAGTTCTGGAACTGGTTTGATGATAGGACATG
                                                                    | | |||    | ||| |  |    |||    |   |  | |  | |||   |  |    | | ||||    | || |     ||  ||||        | |  | ||| |||||| || | |||||||| || ||||| ||||||||||||||||||||| | || ||
gtgagcactatttggaatggaaccattttgcacctattactacatgatggaggagtttctcatgctggttaatggctatacaaaaatggaatttcttcattgctgtaacatttgtttaattttactctgttaatctcaatgccataaaaattcacaaatgacgctactttgttggtttcagTTTTTGACAAAGAATGGGATATATGATTTCTGGAACTGGTTTGATGATCGAACTTG

upper sequence: GRMZM2G060611_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 2
-------atgagtggaaggataaagaaagtgactctcacgtaggggcataactttttggctgaaacgatcatctgtcacatctggtctaaatttcttcttgttacagTTTCTGTCCAAGAATGGAATTTATGAGTTCTGGAACTGGTTTGATGATAGGACATG
        |   |       |  || | || | ||| |  |  ||||   | || |    | ||    | |  |  |   ||   | ||| ||  |  || || |||||  | || ||||||||||| || ||||||||||| ||||||||||||||||| ||
gttcactctcttttcttatttccaggatgttaatcttagctttgggcg--agttctccttttaatttctgagattgcg-gtcctatttaatttgttgtttatttcagTTCTTATCGAAGAATGGAATATACGAGTTCTGGAATTGGTTTGATGATAGGACCTG

upper sequence: GRMZM2G060611_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S404_37V6.1 (Physcomitrella patens), 3'ss of exon 2
atgagtggaaggataaagaaagtgactctcacgtagg---ggcataactttttggctgaaacg-atcatctgtcacat-ctggtctaaatttcttcttgtt--acagTTTCTGTCCAAGAATGGAATTTATGAGTTCTGGAACTGGTTTGATGATAGGACATG
          || |  |     || || | || |  |   |  |   || | |  ||    || | | |  |   |   ||| |  |   |    || |||   ||||   || ||||    || ||||||||||| ||||||||||| |||||||| |||||
-------tctggttgcattgtatgcctgttacttcagcttgataagcctctatccctattccgtagctttaggagcgcactgatgcattgtcacactggttttgcagTACTTGACCAAAGCCGGCATTTATGAGTTTTGGAACTGGTTCGATGATAGAACATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttggctgaaacgatcatctgtcacatctggtctaaatttcttcttgttacagTTTCTGTCCAAGAATGGAATTTATGAGTTCTGGAACTGGTTTGATGATAGGACATG
                                gtctaaa  putative branch site (score: 3)
                                       tttcttcttgttac  CT-rich tract
                                   taaatttctt  TA-rich tract